HEADER ACTIN BINDING PROTEIN 25-APR-13 4KEF TITLE STRUCTURE OF COFILIN MUTANT (COF1-159P) COMPND MOL_ID: 1; COMPND 2 MOLECULE: COFILIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ACTIN-DEPOLYMERIZING FACTOR 1; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: COF1, YLL050C, L0596; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ACTIN DEPOLYMERIZATION FACTOR, ACTIN BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.KISH-TRIER,B.HAARER,G.CINGOLANI,D.C.AMBERG REVDAT 2 28-FEB-24 4KEF 1 SEQADV REVDAT 1 15-MAY-13 4KEF 0 JRNL AUTH E.KISH-TRIER,B.HAARER,G.CINGOLANI,D.C.AMBERG JRNL TITL STRUCTURE OF COFILIN MUTANT (COF1-159P) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 47198 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.127 REMARK 3 R VALUE (WORKING SET) : 0.127 REMARK 3 FREE R VALUE : 0.144 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.040 REMARK 3 FREE R VALUE TEST SET COUNT : 1907 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 28.7073 - 2.6450 1.00 3436 146 0.1489 0.1472 REMARK 3 2 2.6450 - 2.0996 1.00 3389 143 0.1254 0.1448 REMARK 3 3 2.0996 - 1.8343 1.00 3380 143 0.1127 0.1299 REMARK 3 4 1.8343 - 1.6666 0.99 3337 142 0.1052 0.1324 REMARK 3 5 1.6666 - 1.5471 0.99 3335 142 0.1053 0.1255 REMARK 3 6 1.5471 - 1.4559 0.98 3330 142 0.0963 0.1286 REMARK 3 7 1.4559 - 1.3830 0.98 3280 139 0.1037 0.1495 REMARK 3 8 1.3830 - 1.3228 0.96 3249 131 0.1055 0.1573 REMARK 3 9 1.3228 - 1.2719 0.95 3201 134 0.1100 0.1324 REMARK 3 10 1.2719 - 1.2280 0.94 3192 133 0.1184 0.1521 REMARK 3 11 1.2280 - 1.1896 0.93 3144 127 0.1261 0.1481 REMARK 3 12 1.1896 - 1.1556 0.92 3112 135 0.1362 0.1835 REMARK 3 13 1.1556 - 1.1252 0.89 2984 124 0.1599 0.1904 REMARK 3 14 1.1252 - 1.0977 0.86 2922 126 0.1866 0.2044 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.090 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 13.290 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.45 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 1127 REMARK 3 ANGLE : 1.408 1541 REMARK 3 CHIRALITY : 0.083 176 REMARK 3 PLANARITY : 0.007 198 REMARK 3 DIHEDRAL : 11.926 432 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4KEF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000079234. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49213 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.098 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.800 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07600 REMARK 200 FOR THE DATA SET : 2.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.34500 REMARK 200 FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG4000, 150MM NACL, PH 7.4, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 34.77200 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ILE A 73 REMARK 465 ASN A 74 REMARK 465 GLY A 75 REMARK 465 ASN A 76 REMARK 465 GLU A 77 REMARK 465 GLY A 78 REMARK 465 ALA A 140 REMARK 465 GLY A 141 REMARK 465 SER A 142 REMARK 465 HIS A 143 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 3 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 135 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 135 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4KED RELATED DB: PDB REMARK 900 RELATED ID: 4KEE RELATED DB: PDB DBREF 4KEF A 2 143 UNP Q03048 COFI_YEAST 2 143 SEQADV 4KEF GLY A 1 UNP Q03048 EXPRESSION TAG SEQADV 4KEF ASP A 82 UNP Q03048 LYS 82 ENGINEERED MUTATION SEQRES 1 A 143 GLY SER ARG SER GLY VAL ALA VAL ALA ASP GLU SER LEU SEQRES 2 A 143 THR ALA PHE ASN ASP LEU LYS LEU GLY LYS LYS TYR LYS SEQRES 3 A 143 PHE ILE LEU PHE GLY LEU ASN ASP ALA LYS THR GLU ILE SEQRES 4 A 143 VAL VAL LYS GLU THR SER THR ASP PRO SER TYR ASP ALA SEQRES 5 A 143 PHE LEU GLU LYS LEU PRO GLU ASN ASP CYS LEU TYR ALA SEQRES 6 A 143 ILE TYR ASP PHE GLU TYR GLU ILE ASN GLY ASN GLU GLY SEQRES 7 A 143 LYS ARG SER ASP ILE VAL PHE PHE THR TRP SER PRO ASP SEQRES 8 A 143 THR ALA PRO VAL ARG SER LYS MET VAL TYR ALA SER SER SEQRES 9 A 143 LYS ASP ALA LEU ARG ARG ALA LEU ASN GLY VAL SER THR SEQRES 10 A 143 ASP VAL GLN GLY THR ASP PHE SER GLU VAL SER TYR ASP SEQRES 11 A 143 SER VAL LEU GLU ARG VAL SER ARG GLY ALA GLY SER HIS FORMUL 2 HOH *184(H2 O) HELIX 1 1 ALA A 9 LYS A 23 1 15 HELIX 2 2 SER A 49 GLU A 55 1 7 HELIX 3 3 PRO A 94 LEU A 112 1 19 HELIX 4 4 PHE A 124 VAL A 127 5 4 HELIX 5 5 SER A 128 ARG A 138 1 11 SHEET 1 A 6 ALA A 7 VAL A 8 0 SHEET 2 A 6 GLU A 38 SER A 45 1 O ILE A 39 N ALA A 7 SHEET 3 A 6 PHE A 27 LEU A 32 -1 N LEU A 29 O GLU A 43 SHEET 4 A 6 LEU A 63 TYR A 71 -1 O TYR A 64 N PHE A 30 SHEET 5 A 6 ARG A 80 TRP A 88 -1 O PHE A 86 N ALA A 65 SHEET 6 A 6 THR A 117 GLY A 121 1 O GLY A 121 N THR A 87 CRYST1 28.096 69.544 32.048 90.00 100.56 90.00 P 1 21 1 2 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.035592 0.000000 0.006637 0.00000 SCALE2 0.000000 0.014379 0.000000 0.00000 SCALE3 0.000000 0.000000 0.031741 0.00000